Sequence
atgc intronic sequence ATGC exonic sequencegtttattcattgttctgcctgttcttcattagctaattgcagtttgtatggttggttggactagatttgctggatcttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCCGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGAAACTCTTATTGATGATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G440344_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g72980.1 (Oryza sativa), 3'ss of exon 8
gtttattcattgttctgcctgttc-ttcattagctaattgcagtttgtatggttggttggactagatttgctggatcttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCCGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGAAACTCTTATTGATGATC
||| || ||| || |||| |||||||| || || || ||| || ||| ||| |||||| | | ||| || ||||||||||||| ||||| ||||||||||||||||| ||||| || || | || ||||||||||| |||||||||||||| | ||||| ||||||||||
--------------------gttaatttattttctttgctgtgtttatatggttg-ttcaacaagtttttttgaatcctaagcttgcttacttttgtttacagGGTATAATTTCCGGAATAAATGCAGCTAGGCATTCTGATGGAAAGCCACTTATCATTCTTGAGAGAGAAAGCAGTTATATTGGGACTCTGATTGATGATC
upper sequence: GRMZM2G440344_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G32720.1 (Glycine max), 3'ss of exon 5
----------------------------------------------gtttattcattgttctgcct-----gttcttcattagctaattgcagtttgtatggttggttggacta---gatttgctgg--atcttaaacttgctgattgctgta--tatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCCGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGAAACTCTTATTGATGATC
|||| || |||| || || ||| | | | || ||| | | |||| | |||| || | | || | | ||| ||| || || | | |||||||| |||||||| |||||||| ||||| ||| | || | || || | ||| ||||||||||||| ||||||||||||| ||| | ||||||||||
gtattattttaaagttcatctgtactattaattctaatactttgttgtttttttggtgttgtgacttgtgagttgtatcatgggtagttg-actcctcatggctatttgggcttcctgctaatctagcaagctttcttcccctgtttactattcctttagGGTATCATTTCTGGTATCAATGCTGCTAGACATGCAGACAGTAAGCCAGTTATTGTTCTTGAGAGGGAGAGCAGTTATATAGGAACATTAATTGATGATC
upper sequence: GRMZM2G440344_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G00380.1 (Glycine max), 3'ss of exon 7
----------------------------------------------gtttattcattgttctgcct-----gttcttcattagctaattgcagtttgtatggttggttggacta------gatttgctggatcttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCCGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGAAACTCTTATTGATGATC
||| || |||| || || ||| | | | || ||| | | | |||| | |||| || || | || | || | | | | |||||||| |||||||| |||||||| ||||| ||| | || || || || | ||| ||||||||||||| ||||||||||||| ||| | ||||||||||
gtattattttaaagttcatttgtactattaaatctaatacttttgtttttttttggtgttgtgacttgcgagttgtatcatgggtagttg-actcttcatggctatttgggcttcctgctaatctagcaagctttcttcctgtttacaatt-cctttagGGTATTATTTCTGGTATCAATGCTGCTAGACATGCAGACGGTAAGCCAGTTATTGTTCTTGAGAGGGAGAGCAGTTATATAGGAACATTAATTGATGATC
upper sequence: GRMZM2G440344_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT2G13440.1 (Arabidopsis thaliana), 3'ss of exon 8
------------------------------------------------------------gtttattcat-tgttctgcctgttcttcattagctaattgcagtttgtatggttggttggact----agatttgctg-gatcttaaacttgctgattgctgt---atatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCCGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGAAACTCTTATTGATGATC
|||||||| || | || | | | | | | | | | || || |||| | || | | ||| | || | ||| | | || |||||||| || |||||||||||||| || || ||| | || || || | || ||||||||||||||||||||||||||| || | |||||||||
gtgactgatctgtacgagtttttaatttccttaattatggaccttgagttcatgaaaaaggtttattcggatgatatggaaaaaaattacgaat--actataatgaaaactgctgtttagactttgtacatatatagtgatagcattctctgttattcttttcaaatttagGGTATTATATCTGGAATCAATGCTGCCAGACATGCAGACGGTAAGAAACACGTTGTTCTTGAGAGGGAAAGCAGTTATATAGGTACGTTGATTGATGATT
upper sequence: GRMZM2G440344_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 8
---------------gtttattcattgttctgcctgttcttcattagctaattgcagtttgtatggttg---------gttggactag--------atttgctggatc------------ttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCCGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGAAACTCTTATTGATGATC
| | | | || |||| | | || | | || || | |||| | ||||| || | | ||||| | | || || | | | | |||||| ||||||||||||| ||||| || || |||| ||||| ||||| | ||| |||||||||||||||||||||| |||| ||| | || |||||||
gtttttatctatttagaatgtcctttattcttttttatttttaacaaataggaaaagagcatgtggtggctttcacatattggaaaaggaagtcgtagcttctggaccactcttgactctctcaatttatccacgcttttctgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggttggttggactagatttgctggatcttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCCGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGAAACTCTTATTGATGATC
tgctgat putative branch site (score: 3)
atcttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttattcattgttctgcctgttcttcattagctaattgcagtttgtatggttggttggactagatttgctggatcttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCCGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGAAACTCTTATTGATGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG