Sequence
atgc intronic sequence ATGC exonic sequenceGTTATTCTGGCCTCAACAATCTGAGTTTGTAAGGATGGCAGCAAGATTTGGAGCCAAAATTGTACCTTTTGGTGCAGTTGGAGAAGATGACCTTGGTGAAgtaagttttggtcttttctgaaccaatccttttcttttacaaatctattatggcctgaaaatgattgtatcaggcaaagagtgaccaattgtttttatgg...
Basic information
species | Glycine max |
transcript | GLYMA16G05570.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G05570.1 (Glycine max), 5'ss of exon 13
lower sequence: LOC_Os09g33530.1 (Oryza sativa), 5'ss of exon 11
GTTATTCTGGCCTCAACAATCTGAGTTTGTAAGGATGGCAGCAAGATTTGGAGCCAAAATTGTACCTTTTGGTGCAGTTGGAGAAGATGACCTTGGTGAAgtaagt---tttggtcttttctgaaccaatccttttcttttacaaatctattatggcctgaaaatgattgtatcaggcaaagagtgaccaattgtttttatgg-
||| || ||||| | || ||||| ||||| ||||||||| |||| |||||||| | ||| |||| ||||| | ||||||||||||||| | |||| || ||| || || || |||||| || | ||||||| | || | | || || | | || | || ||| | |||
GTTGTTTTGGCCAGAGCAGTCTGAATTTGTGAGGATGGCATCAAGGTTTGGAGCAACAATAATACCATTTGGAGTAGTTGGAGAAGATGATATATGTGATgtgagtgcattcttactattaactaccaattattaatagatgcaaatctcctttgctgtctacattttttttt---gcgaggaacctttg-ctgtctacatgtt
upper sequence: GLYMA16G05570.1 (Glycine max), 5'ss of exon 13
lower sequence: AT3G26840.1 (Arabidopsis thaliana), 5'ss of exon 11
GTTATTCTGGCCTCAACAATCTGAGTTTGTAAGGATGGCAGCAAGATTTGGAGCCAAAATTGTACCTTTTGGTGCAGTTGGAGAAGATGACCTTGGTGAAgtaagttttggtcttttctgaaccaatccttttcttttacaaatctattatggcctgaaaatgattgtatcaggcaaagagtgaccaattgtttttatgg
| | || ||||| ||| || |||||||| || | ||| | | |||||||||||||||||| |||||||||| ||||||||||| || | | |||||||| ||| | | || || || | | | || || |||| | | || || | || || ||| |
GCTGTTTTGGCCAGAACGGTCCGAGTTTGTGAGAGTTGCATCTAAATTTGGAGCCAAAATTGTTCCTTTTGGTGTTGTTGGAGAAGACGATATCTGCGAAgtaagctttctcatatgctatac--attataaatatccgaacctcggtt-tggcgtaactttggtt----tggacattgaatgattctcag---------
upper sequence: GLYMA16G05570.1 (Glycine max), 5'ss of exon 13
lower sequence: AT5G41120.1 (Arabidopsis thaliana), 5'ss of exon 11
GTTATTCTGGCCTCAACAATCTGAGTTTGTAAGGATGGCAGCAAGATTTGGAGCCAAAATTGTACCTTTTGGTGCAGTTGGAGAAGATGACCTTGGTGAAgtaagttttggtcttttctgaaccaatccttttcttttacaaatctattatggcctgaaaatgattgtatcaggcaaagagt-gaccaattgtttttatgg
|||||| ||||| |||| || |||||||||||||| ||| | | ||||||||| ||||| | |||||||| | |||||||||||||| ||| |||||||||| | | || || || || || | | || | || || || || |||| || || ||||
GTTATTTTGGCCAGAACATTCGGAGTTTGTAAGGATAGCATCTAAATTTGGAGCAAAAATCATTCCTTTTGGAGTTGTTGGAGAAGATGATCTTTGTGAAgtaagcaaaaaaatct-cttttccgttctactttcaacacctgcattcttaaaactcattttgtttcaattgggttttgagttaactcgtttgagcaatgg
upper sequence: GLYMA16G05570.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv14s0068g01430.t01 (Vitis vinifera), 5'ss of exon 11
GTTATTCTGGCCTCAACAATCTGAGTTTGTAAGGATGGCAGCAAGATTTGGAGCCAAAATTGTACCTTTTGGTGCAGTTGGAGAAGATGACCTTGGTGAAgtaagttttggtcttttctgaaccaatccttttcttttacaaatctattatggcctgaaaatgattgtatcaggcaaagagtgaccaa--ttgtttttatgg-----
||| || ||||| |||||||||||||||| | || || || || ||||||||||||||| |||| ||||| | |||||||||||||| ||||| | |||| || | | | ||| ||| | | | | |||| | | | | | || ||| | | || | | | |||
GTTGTTTTGGCCAGAACAATCTGAGTTTGTCCGAATTGCGGCTAGGTTTGGAGCCAAAATTATACCCTTTGGAGTTGTTGGAGAAGATGATTTTGGTCAGgtaaacttgattactat-------aatgtccttcaatcatagcttctttattgattattagttctcctaccagttgccatgcaagtaagttcgcatgcatgctaaca
upper sequence: GLYMA16G05570.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv14s0068g01440.t01 (Vitis vinifera), 5'ss of exon 11
GTTATTCTGGCCTCAACAATCTGAGTTTGTAAGGATGGCAGCAAGATTTGGAGCCAAAATTGTACCTTTTGGTGCAGTTGGAGAAGATGACCTTGGTGAAgta-agttttggtcttttctgaaccaatcctt-ttcttttacaaatctattatggcctgaaaatgattgtatcaggcaaa--gagtgaccaattgtttttatgg
||| || ||||| || |||||||||| | | ||||| || ||||||||||||||||||||||| ||||| | |||||||||||||| ||||| | ||| | ||| | | | | | | | | || ||| ||||| | | | | | || || || ||| |
GTTGTTTTGGCCAGAATCATCTGAGTTTATCCGAATGGCGGCTAGATTTGGAGCCAAAATTGTACCCTTTGGGGTGGTTGGAGAAGATGATATTGGTCAGgtatgggcttgactactacaatatcctttatgactgtcttctttatcaattattggtttccagt-accatacagaccagctcatgtatccatccacccaca---Mapped 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|15812273|gb|BI784548.1|BI784548EST: GAGCCAAAATTGTACCTTTTGGTGCAGTTGGAGAAGATGACCTTGGTGAA GTAGTTTTTGATTATGATGACTTGGTGAAGATTCCTTACTTTAGGTCGGAA
genomic: GAGCCAAAATTGTACCTTTTGGTGCAGTTGGAGAAGATGACCTTGGTGAAgtaagttttg ... ggtctttcagGTAGTTTTTGATTATGATGACTTGGTGAAGATTCCTTACTTTAGGTCGGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTATTCTGGCCTCAACAATCTGAGTTTGTAAGGATGGCAGCAAGATTTGGAGCCAAAATTGTACCTTTTGGTGCAGTTGGAGAAGATGACCTTGGTGAAgtaagttttggtcttttctgaaccaatccttttcttttacaaatctattatggcctgaaaatgattgtatcaggcaaagagtgaccaattgtttttatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaatga