Sequence
atgc intronic sequence ATGC exonic sequence...ccatgacattaaggcctttgcttcaattcttttcccgctagaactaacataaactatttgtgcatattgaatgattttgactttttcatatatgtttcagGTGTGAGGAAGGCTGTAGGGGGCAGTTGGCTGTCTGTAAGTCAAGGGATTGCAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
Basic information
species | Glycine max |
transcript | GLYMA16G34510.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g51020.1 (Oryza sativa), 3'ss of exon 1
ccatgacattaaggcctttgcttcaattcttttcccgctagaactaacataaactatttgtgcatattgaatga--ttttgactttttcatatatgttt-------cagGTGTGAGGAAGGCTGTAGGGGGCAGTTGGCTGTCTGTAAGTCAAGGGATTGCAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
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--------atagtgaaattatatcagattgttttccatgattcttagcctctctgatgtttg-atgctacataagtttttgaccttgaactatatgtttacaaattcagGTGGAAGACGCACAATTAGTAATAACTGGTTCTCTGTCAGTCAAGGTATTGCAGAGGATACTTCTGACTTGGTATCGGGCTTTGCAACAATTGGTGATGA
upper sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G015073_T01 (Zea mays), 3'ss of exon 1
ccatgacattaaggc----ctttgcttcaattcttttcccgctagaactaacataaactatt-tgtgcatattgaatgattttgactttttcatatatgtttcagGTGTGAGGAAGGCTGTAGGGGGCAGTTGGCTGTCTGTAAGTCAAGGGATTGCAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
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--gtgaggtgatgactccgcatgtccttaatgctgattattttaatttttctgtgtcatattgtttggctccagaataatgacattgcactcacatat---tcagGTGGAAGACGTACAATCGGCAGTAGTTGGTTGTCTGTCAGTCAAGGTATTGCAGAAGATACCTCCGATCTGGTATCTGGTTTTGCAACACTTGCTGACGA
upper sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G73460.1 (Arabidopsis thaliana), 3'ss of exon 1
ccatgacattaaggcctttgcttcaattcttttcccgctagaactaacataaactatttgtgcatattgaa-tgattttgactttttcatatatgt--ttcagGTGTGAGGAAGGCTGTAGGGGGCAGTTGGCTGTCTGTAAGTCAAGGGATTGCAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
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---tgtcgcttcactttctactttttttttagttcaacttgaaccttaccagttttacttcaggtgtgaaagtaagttttaatctcctaattatttcatatagGTGGGAAAAAATCTACTGGGGGAAACTGGCTTTCAGTAAGTCAGGGAATAGCAGAGGACGCATCTGATCTTGTTTCGGGTTTTGCTACTATTGGTGATGG
upper sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 6
ccatgacattaaggcctttgcttcaattcttttcccgctagaactaacataaa-ctatttgtg---catattgaatgattttgactttttcatatatgtttcagGTGTGAGGAAGGCTGTAGGGGGCAGTTGGCTGTCTGTAAGTCAAGGGATTGCAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
|| || || || || || | || | | | | ||||| | || |||||| | | | || | ||| ||||||| | | | |||||||||||||| |||||||||||||| |||||||||||||| |||||||| || || |||||||| || |||| || ||
----gatgtttcatgtgttttttatgccctgttatgcatctttctgagagatttccttttgtaaaccgtaaagaatgagccttattcttgaaatgatgactcagGTGGAAAACGAACAGCTGGGGGCAGTTGGCTATCTGTAAGTCAAGGCATTGCAGAGGATACCTCTGATCTGGTTTCTGGTTTTGCTACTGTTGGTGACGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacataaactatttgtgcatattgaatgattttgactttttcatatatgtttcagGTGTGAGGAAGGCTGTAGGGGGCAGTTGGCTGTCTGTAAGTCAAGGGATTGCAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
tttttcatatatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccatgacattaaggcctttgcttcaattcttttcccgctagaactaacataaactatttgtgcatattgaatgattttgactttttcatatatgtttcagGTGTGAGGAAGGCTGTAGGGGGCAGTTGGCTGTCTGTAAGTCAAGGGATTGCAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
-catgaca
- - - - - - - cctttgc
- - - - - - - - - - - - - - - - -cccgcta
- - - - - - - - - - - - - - - - - - - - - actaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaatga