Sequence
atgc intronic sequence ATGC exonic sequence...agttattagttctaaattctaataacatttggtgctagttatagtgtactaatgtattattgataataactatggagcctgtcctactatttctttgcagGAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACTGGTGCTGGTGATGCATTTGTGGCTGGAATACTATCACAATTAGCTGTGG
Basic information
species | Glycine max |
transcript | GLYMA14G39670.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G39670.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g12600.1 (Oryza sativa), 3'ss of exon 5
----agttattagttctaaattctaataacatttggtgctagttatagtgta-ctaatgtattattgataataactatggagcctgtcctactatttctttgcagGAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACTGGTGCTGGTGATGCATTTGTGGCTGGAATACTATCACAATTAGCTGTGG
| || || | || | | || |||| | |||| ||||| |||| | ||| || | ||| | ||| | | | ||||| || ||| || || ||| | |||||| ||||||||||||||||||||||||| ||||| ||||| |||||||||||||| || || |||| |
actatctcgtttattttttcttgcagt--cacttggaacc--ttattgtgtaactaaggctgtataaattgtgcctaatgttaatgtttc-ttgtaaaataacagGAATTTAATGGGAGAGTTGGTGGACTTAAGGTGAATGCTGTTGACACCACTGGTGCTGGAGATGCCTTTGTTGCTGGAATACTATCCCAGCTATCTGTTG
upper sequence: GLYMA14G39670.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G072091_T01 (Zea mays), 3'ss of exon 5
agttattagttctaaattctaataacatttggt-gctagttatagtgtactaatgtattattgataataactatggagcctgtcctactatttctttgcagGAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACTGGTGCTGGTGATGCATTTGTGGCTGGAATACTATCACAATTAGCTGTGG
| | | ||||| ||| |||||| | |||| || || | || || || | | | | | | | | ||||| || ||||||| || ||| | ||||| |||||||||||| ||||||||||| ||||| ||||| |||||| | ||||| |||||||| |
-caaacttttcttaaatcttaactacatttacttgctaacaatgccttatgcacataggtctgtaaaatgttgtttacagtacatttttgtggaataacagGATTTTAGTGGTAGAGTTGGTGGACTTAAGGTAAGTGCTGTTGACACAACTGGTGCTGGCGATGCCTTTGTTGCTGGAGTGCTATCTCAATTAGCCACAG
upper sequence: GLYMA14G39670.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G66430.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------------------------------------------------agttattagttctaaattctaataacatttggtgctagttatagtgtactaatgtattat-tgataataactatggagcctgtcctactatttctttgcagGAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACTGGTGCTGGTGATGCATTTGTGGCTGGAATACTATCACAATTAGCTGTGG
| ||| |||| | || ||| | ||| | | ||| | | | | |||||| || | ||| | || ||| ||||| || |||| || || | |||||||||||||||| || ||||| || |||||||||||||||||||| || || |||||||| ||| |||| |
gtgtgaaaagttcctctctaccttttggttttgatacacttgtccaacttaaagcggattatgatgagaactacgtatcctttctcttcttactcaaggtttaacggcggttttt-tttaccgcaatgtgaggtcataatacttaaaaactttgttccac------tttacagGATTTTAGTGGGAGAGTGCATGGATTGAAGGTGGATGTAGTGGACACAACAGGTGCTGGTGATGCATTTGTTGCGGGGATACTATCGCAACTAGCCAATGMapped 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|58019567|gb|CX706309.1|CX706309EST: CTACTCCTAGTTACCAAAGGTGCAGAGGGGGTTGCAGATATTATACCAAG GAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACT
genomic: CTACTCCTAGTTACCAAAGGTGCAGAGGGGGTTGCAGATATTATACCAAGgtaagccttc ... ttctttgcagGAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACT
EST:
gi|58016522|gb|CX703264.1|CX703264EST: CTACTCCTAGTTACCAAAGGTGCAGAGGGGGTTGCAGATATTATACCAAG GAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACT
genomic: CTACTCCTAGTTACCAAAGGTGCAGAGGGGGTTGCAGATATTATACCAAGgtaagccttc ... ttctttgcagGAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtactaatgtattattgataataactatggagcctgtcctactatttctttgcagGAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACTGGTGCTGGTGATGCATTTGTGGCTGGAATACTATCACAATTAGCTGTGG
taataac putative branch site (score: 1)
tcctactatttcttt putative PPT
aatgtattattgataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttattagttctaaattctaataacatttggtgctagttatagtgtactaatgtattattgataataactatggagcctgtcctactatttctttgcagGAGTTCTGTGGTAGGGTCAAGGGATTGAAGGTGGATGCTGTTGACACCACTGGTGCTGGTGATGCATTTGTGGCTGGAATACTATCACAATTAGCTGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA