Sequence
atgc intronic sequence ATGC exonic sequence...gtaaattctattgttctattttgccatctactttctcttgaagggtttagttttcaaaaatctatcagatgttacattcaattttagatatcatttgcagGAAGAGTTTCAGTTGGCTTTGTTCAAGACAAATAAAAAAGAAAGTCTGTTTGCTGATCGG
Basic information
species | Glycine max |
transcript | GLYMA08G44580.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G44580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G112672_T02 (Zea mays), 3'ss of exon 2
----------------------------------------------------gta-aattctattgttctattt-----tgccatctactttctct-tgaagggtttagttttcaaaaatctatcagatgttacattcaattttagatatcatttgcagGAAGAGTTTCAGTTGGCTTTGTTCAAGACAAATAAAAAAGAAAGTCTGTTTGCTGATCGG
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gtttgtgggtgattgctgctgctttctttcttttcttctcttaggaaaatgaatacaactttcttgctttatgtatgtacacaatacacatacaccatacacatgatcgtgatgagtaatctg--ggttgtggcgctcttgtcctggcatc--ctgcagGAGGAGTTTCAGCTGGCGCTGTTCAAGACTAATAAGAAGGAAAGTTTGTTTGCTGATCGG
upper sequence: GLYMA08G44580.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G26570.2 (Arabidopsis thaliana), 3'ss of exon 4
------------gtaaattctattgttctattttgccatctacttt--ctcttgaagggtttag--ttttcaaaaatctatcagatgttacattc-aatttta---gatatcatttg-----cagGAAGAGTTTCAGTTGGCTTTGTTCAAGACAAATAAAAAAGAAAGTCTGTTTGCTGATCGG
| | ||| ||| || ||||| |||| ||| | | | | | | || | ||| | || | ||| ||||| || | ||| |||||||| |||||||| || ||||||||||||||||||||||| || ||||||| || |||
gtatgaaggaagggcatcattatatgtcttttatgccactcacttatactcctcacgaatcatgcatattgctacgtcttttggacatccttttctgattttccttgacctgtcttgtcgttcagGAAGAATTTCAGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGG
upper sequence: GLYMA08G44580.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G55990.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaattctattgttctattttgccatctactttctcttgaagggtttagttttcaaaaatctatcagatgttacattcaattt---tagatatcatttg---cagGAAGAGTTTCAGTTGGCTTTGTTCAAGACAAATAAAAAAGAAAGTCTGTTTGCTGATCGG
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-------gtataactctaacttgtttgatcttcttcctcatttggtaaagcttt-agtgattgatctaacaatctgtctaatttactcatctcttgtttgtatcagGAAGAGTTTCAGTTGGCTTTGTTTAAGACAAATAAAAAAGAGAGTTTGTTTGCAGATCGG
upper sequence: GLYMA08G44580.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv19s0015g01070.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------------------------------------gtaaattctattgttctattttgccatctactttctcttgaagggtttagttttcaaaaatctatcagatgttacattcaattttagatatcat-ttgcagGAAGAGTTTCAGTTGGCTTTGTTCAAGACAAATAAAAAAGAAAGTCTGTTTGCTGATCGG
| | | || | || | || || | | | ||| |||| | || | || || | | | | || ||| || |||||||||||||| |||||||||||||| ||||| ||||| ||||| | ||||||||||||
gttcatagataagctattattcaatttataggcagtattggaaatctgattgtagtaatgcacctcacatgaataaatctcttgattctctcccattccatttgtt--gtttcccaactatagttagtaattgatgtt--tctacggtaccatattacagGAAGAGTTTCAATTGGCTTTGTTCAAAACAAACAAAAAGGAAAGCTTATTTGCTGATCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagttttcaaaaatctatcagatgttacattcaattttagatatcatttgcagGAAGAGTTTCAGTTGGCTTTGTTCAAGACAAATAAAAAAGAAAGTCTGTTTGCTGATCGG
attcaattttagatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattctattgttctattttgccatctactttctcttgaagggtttagttttcaaaaatctatcagatgttacattcaattttagatatcatttgcagGAAGAGTTTCAGTTGGCTTTGTTCAAGACAAATAAAAAAGAAAGTCTGTTTGCTGATCGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT