Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcactcgattgagcaatttaattctctttctttgattgttattttcatagatcagatttcctatcatcttcattacagATAGTCAGACCTGTTCGTTCGAAACATTGTTCTACATGTGATCGTTGCGTGGAGCAGTTTGATCACCATTGCCCTTGGGTATCTAATTGCATAGGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G024437_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g43680.1 (Oryza sativa), 3'ss of exon 9
gtaagtcactcgattgagcaatttaattctctttctttgattgttattttcatagatcagatttcctatcatcttcattacagATAGTCAGACCTGTTCGTTCGAAACATTGTTCTACATGTGATCGTTGCGTGGAGCAGTTTGATCACCATTGCCCTTGGGTATCTAATTGCATAGGAAAG
|||||| || |||| | | |||||||| | | ||| ||||| || |||| | | ||| ||||||| || ||||||||||||||||| |||||||||||||||||||| || || ||||||||||| || || || |||||||||||||||||||| || |||
gtaagt-acagcattgtcgattagttttctctttgctaggttgatatttgggcc--tctgattccaagggttattc--tacagATTGTGAGACCTGTTCGTTCGAAGCATTGTTCTACATGTGATCGCTGTGTTGAGCAGTTTGACCATCACTGTCCTTGGGTATCTAATTGCATTGGCAAG
upper sequence: GRMZM2G024437_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA13G23230.1 (Glycine max), 3'ss of exon 10
---------------------------------------------gtaagtcactcgattgagcaattta---attc---tctttctttgattgttattttcatagatcagatttcctatcatcttcattacagATAGTCAGACCTGTTCGTTCGAAACATTGTTCTACATGTGATCGTTGCGTGGAGCAGTTTGATCACCATTGCCCTTGGGTATCTAATTGCATAGGAAAG
| | | || | | || || || | |||||||||| | ||| | | | ||| | | ||| | |||| ||||| ||| |||| | ||||| |||||||| ||||||| ||| ||||| || |||||||||||||| ||||||||||| |||||||| || |||
gttctttgctttctgttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagactacacatgcccatctttctttgcattgaattgtttcatacacagttttatgttgccttttctttagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATTGGCAAG
upper sequence: GRMZM2G024437_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA17G11600.1 (Glycine max), 3'ss of exon 9
---------------------------------------------gtaagtcactcgattgagcaattta---attct----ctttctttgattgttattttcatagatcagatttcctatcatcttcattacagATAGTCAGACCTGTTCGTTCGAAACATTGTTCTACATGTGATCGTTGCGTGGAGCAGTTTGATCACCATTGCCCTTGGGTATCTAATTGCATAGGAAAG
| | | || | | || || || | || ||||| || ||| | | | |||| | | |||| | ||||| ||||| ||| |||| | ||||| ||||| || ||||||||||| ||||| || |||||||||||||| ||||||||||| |||||||| || |||
gttctttgctttcttttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagattgcagatgccggtctttcctttgctttgaattgttttgcacacaattttatgttgtcttttcttcagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCCACCTGTGATCGTTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATCGGCAAG
upper sequence: GRMZM2G024437_T02 (Zea mays), 3'ss of exon 9
lower sequence: AT5G20350.1 (Arabidopsis thaliana), 3'ss of exon 9
------------------------gtaagtcactcgattgagca----atttaattctctttctttgattgttattttcatagatcagatttcctatcatcttcattacagATAGTCAGACCTGTTCGTTCGAAACATTGTTCTACATGTGATCGTTGCGTGGAGCAGTTTGATCACCATTGCCCTTGGGTATCTAATTGCATAGGAAAG
|| || | | || | ||||| || | | || ||| || | | || | | | |||| || ||| ||||| |||||||| |||| | || || ||||| || ||||||||||| || ||||| |||||||||||||| ||||||||||| ||||| | |||||
gtacctgctcaaattccgttttatgtctttcttcaatcttaacaccatacttaatcatcgatgctacatatttacttgttttggtcc-actgtgtttcat-tttatt-cagATTATCAGACCTCTTCGAGCTAAGCACTGTTCCACCTGTGATCGTTGTGTAGAGCAATTTGATCACCATTGTCCTTGGGTATCAAATTGTGTTGGAAAA
upper sequence: GRMZM2G024437_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv11s0118g00470.t01 (Vitis vinifera), 3'ss of exon 9
-------------------gtaagtcactcgattgagcaatttaattctctttctttgattgttattttcatagatcagatttcctatcatcttcattac-agATAGTCAGACCTGTTCGTTCGAAACATTGTTCTACATGTGATCGTTGCGTGGAGCAGTTTGATCACCATTGCCCTTGGGTATCTAATTGCATAGGAAAG
| | || ||| | || | | || | ||| | | || ||||||| || ||| |||| ||||||||| ||||| | || || ||||| || |||||||| || || || |||||||| || |||||||||||||| ||||||||||| || |||
gtgccttttacttctggtttttgttgccttttttgtatgacttgttcaacatttgtctattctaacttcagcctgatgtgattcctattcgatttgttattagATTGTCAGACCTCTTCGTGCAAAGCACTGTTCCACCTGTGATCGATGTGTCGAACAGTTTGACCATCATTGCCCTTGGGTGTCTAATTGCATTGGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctttctttgattgttattttcatagatcagatttcctatcatcttcattacagATAGTCAGACCTGTTCGTTCGAAACATTGTTCTACATGTGATCGTTGCGTGGAGCAGTTTGATCACCATTGCCCTTGGGTATCTAATTGCATAGGAAAG
ctttgat putative branch site (score: 5)
tttcctatcatcttc putative PPT
tttgattgttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcactcgattgagcaatttaattctctttctttgattgttattttcatagatcagatttcctatcatcttcattacagATAGTCAGACCTGTTCGTTCGAAACATTGTTCTACATGTGATCGTTGCGTGGAGCAGTTTGATCACCATTGCCCTTGGGTATCTAATTGCATAGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG