Sequence
atgc intronic sequence ATGC exonic sequencegttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
Basic information
species | Glycine max |
transcript | GLYMA14G23990.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os01g73130.1 (Oryza sativa), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
| | || || || |||||| | | | || || |||| | | ||| ||||| |||| || ||| || ||| || || | || | ||| ||||| ||||||||||| ||||| ||| || || ||||||||| ||||| |||||| |||||||||||||||||||||||||||||||||||||
--------------------------------------------------------------------agaaaaaaagatcgtaaaaagctcgatca--aacgatcga------tctgcaagtt-tctgcattacgaattacgaattgatgg--------atgaaatttggttataat----tttgcagGCATGGGGGCGGCGTACGGGACGGCTCGGAGCGGCGTCGGGGTGGCGCACATGGGGGTGATGCGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os11g06890.2 (Oryza sativa), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagtta-ttgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
| || | | | | | | | | | ||| | |||| || |||| ||| | || ||||| | | || || ||| | | | ||| ||||| ||||||||||| ||||| ||||| || || || |||||||| |||||||||||| | |||||||| ||||||||||| |||||||| |||||
------------------------------------------------------------------------ccgattggagatcggatttgtggggaaaaaaagttgggagctttggatt--ctgttcttgatggggg------------gatttgcttatttgctttcattcgatctgtt----gcagGCATGGGTGCGGCGTACGGGACGGCGAAGAGCGGCGTCGGCGTGGCGTCCATGGGCGTGATGCGCCCGGAGCTCGTGATGAAGTCCATCGTGCCCGTGGT
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os05g01560.1 (Oryza sativa), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
| || || | | || ||| | | || |||| | | || | | | | || ||| ||||| || || ||||| || || ||||| || ||||| |||||||| ||||| |||||| | ||||| |||||||||||||| ||||| || || ||
----------------------------------------------------------------------------------------------------------gtaagctcccaatcttcc-ccttcactttctcggggccagatctgatctgagatgaggttgacac----acgacgcatgcaagGCATGGGCGCCGCCTACGGCACCGCCAAGAGCGGCGTGGGCGTGGCGTCCATGGGGGTGATGCGCCCGGAACTGGTGATGAAGTCCATCGTCCCCGTCGT
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgattt-attccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
| | | | || || |||| | ||| || | | | | | | | | | | || | || | || | ||| | ||| ||||| || |||||||| || || ||||| || || || |||||||||||||| |||||| |||||||||| || |||||||| |||||||| |||||
----------------------------------------------------------------------------------------gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccgat--gcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G177005_T01 (Zea mays), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttatt-atgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
| | || | || ||| | | || | | | | || || | | | | || ||| ||||||| || || | ||| ||||| || |||||||| || || ||||| || || || |||||||||||||| |||||| |||||||||| || |||||||| |||||||| |||||
----------------------------------------------------------------------------------tggtccgatcgggtgtcagtctgtcgga--ttccagaaagcggtgggctttttcggtcgggcagttgctgacta------ggctgttattttgcttgatccggcgcagGCATGGGCGCCGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G101020_T01 (Zea mays), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttat-----tatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
| | || || | | ||| | ||| | || || || | || | || || | | | | | || | | ||| ||||| ||||||||||| || || |||||||| || || |||||||| ||||| || ||| | || ||||| || |||||||| |||||||| |||||
----------------------------------------------------------------------------------------------gagagaatttgggttggatccatgtggctgggacgtgtgagggcgaaatttttggtggtgaatgacatgatctccctctgtgtatgtgtgtggctcgcagGCATGGGGGCGGCGTACGGGACAGCCAAGAGTGGCGTCGGCGTGGCGTCCATGGGTGTCATGCGCCCAGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagc-tctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
| | | | || ||| | || | ||||| || | | || || || | | ||||| ||| ||| || || || || | ||| ||||| || || || ||||| || |||||||| ||||| ||||| || ||||| |||||| |||| |||||||||||||||||||||||||| |||||
-------------------------------------------------------------------------aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgct------cgctctttaccgatatg--ttaacccgaggaggttttt--------gagcg-cagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S45_97V6.1 (Physcomitrella patens), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
|||||| | || | ||| || | | ||| | || | | | | || | | || | || |||| | || || || | ||| ||||| || || || ||||| || |||||||| ||||| ||||| || ||||| |||||| |||| ||||||||||||||||||||||| || |||||
---------------------------------------------------------ataacagcgatgttg--------ggcaccccactttcgagtgcctcatctaggatatggcctcgaaattcctagatatgaat-aaaatggtgaaggtttttgcgcg-----------------------cagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTACCAGTGGT
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S200_79V6.1 (Physcomitrella patens), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttattatgattgg--tagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
| | | | | ||| |||| || | || | || | | | | | || || || || | | | |||| ||| ||||| || || || || || || |||||||| ||||| ||||| || ||||| |||||| |||| |||||||||||||||||||||||||| |||||
-------------------------------------------------------------------------------------------cccgtgaacggtgttgggcacttaagcttcaatttcctcagctagggtgcgacttcgaaactcctggacatgaactaaatgttgaatgttattgcgtcagGCATGGGCGCTGCTTATGGGACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCTGTGGT
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ14420 (Selaginella moellendorffii), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgata-acaacaatactactaataataataccaagctctagcgtgagttattgaa--aactttctgttatctgtctttgttacggattaaaaaaatatgattt---attccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
| | | | |||| | | | | | || || | | | | || | | | | | || ||| || | || || ||| ||| | || ||| || || | | | ||| | | | || | | | | | || | ||| |||||||| || || ||||| ||||||||||| || || ||||| || |||||||||||| |||||||||| |||||||| ||||||||||| |||||
----gtaagttcttgcctctcaccgccatggctgga----ctggatctagggttgtggtgcgtgtctcggctgc--gcggcattgcaatgcctgagcttgggccatggattcgccttcctgcgcgatttccttgccaca-atcccgagatttcgatcccaaaattccccattttcttatggaattttctttgcagGCATGGGAGCTGCCTATGGAACCGCAAAGAGTGGTGTTGGAGTGGCATCCATGGGCGTGATGCGGCCGGAGCTCGTGATGAAATCGATCGTGCCAGTGGT
upper sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ26016 (Selaginella moellendorffii), 3'ss of exon 1
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgata-acaacaatactactaataataataccaagctctagcgtgagttattgaa--aactttctgttatctgtctttgttacggattaaaaaaatatgattt---attccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
| | | | |||| | | | | | || || | | | | || | | | | | || ||| || | || || ||| ||| | || ||| || || | | | ||| | | | || | | | | || | ||| |||||||| || || ||||| ||||||||||| || || |||||||| |||||||||||| |||||||||| |||||||| ||||||||||| |||||
----gtaagttcttgcctctcaccgccatggctgga----ctggatctagggttgtggtgcgtgtctcggctgc--gcggcattgcaatgcctgagcttgggccatggattcgccttcctgcgcgatttccttgccaca-atcccgatatttcgatcccaaaattccccattttctcatggaattttctttgcagGCATGGGAGCTGCCTATGGAACCGCAAAGAGTGGTGTTGGAGTGGCGTCCATGGGCGTGATGCGGCCGGAGCTCGTGATGAAATCGATCGTGCCAGTGGTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|10843363|gb|BF066665.1|BF066665EST: CGCTCCTTTCTTCGGCTTCCTCGGTGCCGCTGCGGCCCTCGTCTTCTCCT GTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGA
genomic: CGCTCCTTTCTTCGGCTTCCTCGGTGCCGCTGCGGCCCTCGTCTTCTCCTgttcgccact ... tgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cggattaaaaaaatatgatttattccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
tttatttttattatga TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT