Sequence
atgc intronic sequence ATGC exonic sequence...tacaactgaaaaataggctcatacacactgaaaaccatgcattttattatctttttgtacaactggtttattttcatcatcttttctcccttcatgacagGTTAAGAAAAGTGGAATGCCTCCTGGTCCTCGTGCTGGGTTTTCCATGTGTGTTCATAAGAGAAGGGCTCTGCTATTTGGTGGTGTTGTGGATATAGAAG
Basic information
species | Glycine max |
transcript | GLYMA04G36770.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G36770.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g40740.4 (Oryza sativa), 3'ss of exon 3
---------tacaact----gaaaaataggctcatacacactgaaaaccatgcattttattatctttt------tgta-caactggtttattttcatcatcttttctcc------cttcatgacagGTTAAGAAAAGTGGAATGCCTCCTGGTCCTCGTGCTGGGTTTTCCATGTGTGTTCATAAGAGAAGGGCTCTGCTATTTGGTGGTGTTGTGGATATAGAAG
| ||| | || || | ||| | | | | || || || | ||| | || | |||| | |||| ||| | || || | ||| | | |||||||||||| ||| ||||| ||||| || | ||||||||||| ||||| ||||| |||| ||||||| | || || |||||||| || ||||| |||
gtgatctcttgcaattttttagaacattgtatcaacttccatcatgatagtgtatcgagttttactttaagccatatatccactgagtgatttgcatattattaccttcacttgatttcttaatagGTTAAGAAAACTGGGATGCCACCTGGCCCCAGAGCTGGGTTTTCTATGTGCGTTCACAAGAAAAGGGCTGTTCTTTTCGGTGGTGTGGTAGATATGGAAA
upper sequence: GLYMA04G36770.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G100815_T01 (Zea mays), 3'ss of exon 7
tacaactgaaaaataggctcatacacactgaaaaccatgcattttattatctttttgtacaactggt-ttattttcatcatcttt-----tctcccttcatgacagGTTAAGAAAAGTGGAATGCCTCCTGGTCCTCGTGCTGGGTTTTCCATGTGTGTTCATAAGAGAAGGGCTCTGCTATTTGGTGGTGTTGTGGATATAGAAG
||| || | | | ||| | | ||| || | | | || || || || ||| || |||| ||| || | | |||||||||| ||| ||||| |||||||| | ||||| ||||| |||||||| || |||| ||||||| | || ||||||||||| || ||||| ||||
-----aggaattttatattgaca-acattttgagttttgccttaaaagctacaggtccccatctagtgttttttatatttactttgttaatcttaattgctaatagGTTAAGAAGGCTGGGATGCCGCCTGGTCCCAGAGCTGGTTTTTCAATGTGTGTGCACAAGAAAAGGGCTGTTCTTTTTGGTGGTGTGGTAGATATGGAAG
upper sequence: GLYMA04G36770.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 10
tacaactgaaaaataggctcatacacactgaaaaccatgc-attttattatctttttgtacaactg--gtttat-tttcatcatcttttctcccttcatgacagGTTAAGAAAAGTGGAATGCCTCCTGGTCCTCGTGCTGGGTTTTCCATGTGTGTTCATAAGAGAAGGGCTCTGCTATTTGGTGGTGTTGTGGATATAGAAG
| | || || | || | | | ||| | | || ||| | | ||| || ||| |||| | ||| | | |||| | | |||| |||||| ||| ||||||||||| ||||||||||||||||| |||||||| ||||| | ||||||| |||||||||| ||||| || ||||| ||||
----aattaatgctaagtaactaaaaatttttgaccgccctacttctccatcaaagagcatgcctgatgtctatgtttctacttctgattttcctttctaatagGTGAAGAAATCTGGGATGCCTCCTGGACCTCGTGCTGGGTTTTCTATGTGTGTCCATAAAAAAAGGGCTGTGCTATTTGGGGGTGTAGTTGATATGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatctttttgtacaactggtttattttcatcatcttttctcccttcatgacagGTTAAGAAAAGTGGAATGCCTCCTGGTCCTCGTGCTGGGTTTTCCATGTGTGTTCATAAGAGAAGGGCTCTGCTATTTGGTGGTGTTGTGGATATAGAAG
tttattttcatcatct CT-rich tract
tttattttcatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacaactgaaaaataggctcatacacactgaaaaccatgcattttattatctttttgtacaactggtttattttcatcatcttttctcccttcatgacagGTTAAGAAAAGTGGAATGCCTCCTGGTCCTCGTGCTGGGTTTTCCATGTGTGTTCATAAGAGAAGGGCTCTGCTATTTGGTGGTGTTGTGGATATAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - aaaaata
- - - - - - - - - -catacac
- - - - - - - - - - - - - - - - - ccatgca