Sequence
atgc intronic sequence ATGC exonic sequencegtaaactgtcagctggataacttttttagtttttaattcagaagtacttcttatttgatatcttgttactttatccctaatatgctatttcagATGGCAGAATATAGGATTTCAATCTACGGAAGGAAACAGAGTGAATGGGACCAACTTGCAAGTTGGATAGTGAACAATGAATTGCACAGTGGAAATGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G416667_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os05g28180.3 (Oryza sativa), 3'ss of exon 2
gtaaactgtcagctggataacttttttagtttttaattcagaagtacttcttatttgatatcttgttactttat---ccctaatatgctatttca---gATGGCAGAATATAGGATTTCAATCTACGGAAGGAAACAGAGTGAATGGGACCAACTTGCAAGTTGGATAGTGAACAATGAATTGCACAGTGGAAATGTTG
|| | || |||||| | | | || || | ||| | ||||||||| || | || || | | ||||| | ||||| |||||| |||||||||||||||||||| || ||||| || |||||||||||| | |||||||| ||||||||||||||||||||| ||||| ||||||||
-------gtaaactcctcttttttttttggtat--atgcaaatgtaatgcttatttgagatatccatatttaacctgctctaatttttgttttcaccagATGGCTGAATATAGGATTTCAATCTATGGGAGGAAGCAAAGTGAATGGGACAACCTTGCAAGCTGGATAGTGAACAATGAATTGTCCAGTGAAAATGTTG
upper sequence: GRMZM2G416667_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA03G07460.1 (Glycine max), 3'ss of exon 10
-gtaaactgtcagctgga---taacttttttagtttttaattcagaagtacttcttatttgatatcttgttactt-tatccctaatatgctatttca--gATGGCAGAATATAGGATTTCAATCTACGGAAGGAAACAGAGTGAATGGGACCAACTTGCAAGTTGGATAGTGAACAATGAATTGCACAGTGGAAATGTTG
| | ||| || | || | ||| | | | | || | | | ||| | || | | |||| | || | | | | |||| |||||| |||||||| || ||||| || || ||||| || ||||| ||||||||||| || |||||||||||||| ||||| ||| |||||| |||||||
tttgacttgttgactataatttaccatttcttgactgttgtttatatatgcttatccccatctagatgttaacttatttctgtgacttatttattcacagATGGCTGAATATAGAATATCAATATATGGTAGGAAGCAAAGTGAGTGGGACCAACTAGCCAGTTGGATAGTGAATAATGATTTGTACAGTGAGAATGTTG
upper sequence: GRMZM2G416667_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA01G29470.2 (Glycine max), 3'ss of exon 11
----gtaaactgtcagctggataacttttttagtttttaattcagaagtactt---cttattt-gatatcttgttactt-tatccctaatatgctatttcagATGGCAGAATATAGGATTTCAATCTACGGAAGGAAACAGAGTGAATGGGACCAACTTGCAAGTTGGATAGTGAACAATGAATTGCACAGTGGAAATGTTG
|| || || | ||| | | | || || | | | || | || | ||| | ||| || | | ||| || | | |||||||| |||||||| || ||||| || || ||||| || ||||| ||||||||||| || |||||||||||||| ||||| ||| |||| | ||||| |
ttggacttgttgacaataatttaccatttcttgactgtagtttatatatgctcatccccatctagatgttaacttatttctgtgccttatttat--tcacagATGGCTGAATATAGAATATCAATATATGGTAGGAAGCAAAGTGAGTGGGACCAACTAGCCAGTTGGATAGTGAATAATGATTTGTACAGCGAGAATGTCG
upper sequence: GRMZM2G416667_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv08s0105g00570.t01 (Vitis vinifera), 3'ss of exon 10
--------gtaaactgtcagctggataacttttttagtttttaattcagaagtacttcttatttgatatcttgttactttatccctaatatgctatttcagATGGCAGAATATAGGATTTCAATCTACGGAAGGAAACAGAGTGAATGGGACCAACTTGCAAGTTGGATAGTGAACAATGAATTGCACAGTGGAAATGTTG
| | ||| || || || | | |||||| ||| | || | | | || | | | | | | || | ||| | | |||||||| ||||| ||||| ||||| || || || || || ||||| |||||||||||||| |||||||||||||| ||||| ||| |||||| |||||||
agggaatcttcatctg-catgtgtatgagcccatctgtttttgatttatttgtttatttattatggtttgtaaattcctgatgctaaatgctatgctacagATGGCTGAATACAGGATATCAATATATGGCAGAAAGCAAAGTGAGTGGGACCAACTTGCCAGTTGGATAGTGAATAATGATTTGTACAGTGAGAATGTTG
upper sequence: GRMZM2G416667_T01 (Zea mays), 3'ss of exon 10
lower sequence: PP1S307_76V6.1 (Physcomitrella patens), 3'ss of exon 10
--------------------------------------------------------------------------------------------------gtaaactgtcagctggataacttttttagtttttaa--ttcagaagtacttcttatttgatatcttgttactttatccctaatatgctatttcagATGGCAGAATATAGGATTTCAATCTACGGAAGGAAACAGAGTGAATGGGACCAACTTGCAAGTTGGATAGTGAACAATGAATTGCACAGTGGAAATGTTG
|| | | || ||| | | |||| | || || | | | | || | | | | | | ||| | |||||||||||||| ||||| ||||| ||||| || ||||| | |||||||||||||| | || |||||||| || | || || | || |||| |||||
gtaaacatctacaacttcttttcaattaaatttttttattagatgtttttgtactccattttgaaataccacttctgcccaattcacaaccccaccacacaaggttttgagtgagcaacacacatgggttttgagtttttgaggggcatgaagtcc---attgaatcccatcaacagca-tattcactttcagATGGCAGAGTATAGAATTTCTATCTATGGGAGGAAGGAAAGTGAATGGGACCAGTTAGCCAGTTGGATTGTCACTAACAAACTTCAAAGTGAGAATGTGA
upper sequence: GRMZM2G416667_T01 (Zea mays), 3'ss of exon 10
lower sequence: PP1S77_89V6.1 (Physcomitrella patens), 3'ss of exon 10
-gtaaactgtcagc-----tggataacttttttagtttttaattcagaagtacttcttatt-tgatatcttgttactttatccctaatatgctatttcagATGGCAGAATATAGGATTTCAATCTACGGAAGGAAACAGAGTGAATGGGACCAACTTGCAAGTTGGATAGTGAACAATGAATTGCACAGTGGAAATGTTG
| |||| | | | | || | || | ||||| | || | |||| || | | | || ||| | | | | ||||||| || |||||||| ||||| ||||||||||| ||||||| ||||| ||||| || |||||| || ||||| | ||||||||| || ||
tgaaaacctcctgtctatgttgctagtactctttatctttaaaactaaaatccttccacttgcaaagaatcatgacgatatttgtctgttcgttgtgtagATGGCTGAGTATAGGATATCAATTTACGGAAGGAAGAAGAGTGAGTGGGATCAACTGGCCGATTGGATTGTTCACAATAAGCTGCACAGTGAGAACGTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagaagtacttcttatttgatatcttgttactttatccctaatatgctatttcagATGGCAGAATATAGGATTTCAATCTACGGAAGGAAACAGAGTGAATGGGACCAACTTGCAAGTTGGATAGTGAACAATGAATTGCACAGTGGAAATGTTG
ccctaat putative branch site (score: 3)
ctatttc putative PPT
ttcttatttgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaactgtcagctggataacttttttagtttttaattcagaagtacttcttatttgatatcttgttactttatccctaatatgctatttcagATGGCAGAATATAGGATTTCAATCTACGGAAGGAAACAGAGTGAATGGGACCAACTTGCAAGTTGGATAGTGAACAATGAATTGCACAGTGGAAATGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA