Sequence
atgc intronic sequence ATGC exonic sequence...gttagtatcagagtgctctattattacaaactgcattctctaaggttataatgtttcctaccagagaaattgatattttcacctcttaaaacttgcccagATCCACGTCTGACAGACTATGACACACTGCTGGAAAATATACATGGTCTGAAGGAAGGAAGGTCAGTTCAGGTTCCAATATATGATTTCAAGTCAAGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g47860.2 (Oryza sativa), 3'ss of exon 2
--gttagtatcagagtgctctatt--attacaaactgcattctctaaggttataatgtttcctaccagagaaattgatattttcacctcttaaaacttgcccagATCCACGTCTGACAGACTATGACACACTGCTGGAAAATATACATGGTCTGAAGGAAGGAAGGTCAGTTCAGGTTCCAATATATGATTTCAAGTCAAGCTG
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agtttgattgcttggagctgcattcaattgggagcggcagt----ggtgctaactaactacttaactgagttagtgatgtctgatctttgtgacatttgaacagATCCACGCCTAACAGACTACGACACACTGTTGGAAAATATTCATGGTCTGAAGGAGGGAAGATCAGTTCAGGTTCCAATATATGATTTCAAGATGAGCTG
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA02G14110.1 (Glycine max), 3'ss of exon 2
gttagtatcagagtgctctattattacaaactg-cattctctaa-ggttataatgtttcctaccagagaaattgatattttcacctcttaaaac---ttgcccagATCCACGTCTGACAGACTATGACACACTGCTGGAAAATATACATGGTCTGAAGGAAGGAAGGTCAGTTCAGGTTCCAATATATGATTTCAAGTCAAGCTG
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-----tatattcatgttttattatgaaatttaaacactggctaacagttttaagttaggacaccaatgaccaatctcttgtgaactctgttattcctttgtgcagATCCACGCTTAACAGACTATGACACATTACTCCAGAATCTGCACGATTTAAAGGAAGGAAAGCCAGTTCAAGTTCCGATATATGATTTCAAGTCCAGTTC
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA17G09080.1 (Glycine max), 3'ss of exon 2
gttagtatcagagtgct-ctatta-ttacaaactgcattctctaaggttataatgtttcctaccagagaaattgatattttcacctc-ttaaaacttgcc-cagATCCACGTCTGACAGACTATGACACACTGCTGGAAAATATACATGGTCTGAAGGAAGGAAGGTCAGTTCAGGTTCCAATATATGATTTCAAGTCAAGCTG
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---agtttctaagaaatacttttacttgtttatcatattagtcaatac-ataggaagggatgttatgcaacacagctttctaatgtcattgttatttgaaacagACCCTCGGTTGACAGATTATGATACCTTGCTCGAAAATATACAGGGTCTTAAAGCAGGGAAGCCTGTTCAAGTTCCAATATACGATTTCAAGTCTAGTTC
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA01G09660.1 (Glycine max), 3'ss of exon 2
gttagtatcagagtgctct-attattacaaactgcattctctaa-----ggttataatgtttcctaccagagaaattgatattttcacctcttaaaac---ttgcccagATCCACGTCTGACAGACTATGACACACTGCTGGAAAATATACATGGTCTGAAGGAAGGAAGGTCAGTTCAGGTTCCAATATATGATTTCAAGTCAAGCTG
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---------aaaatattttgattattatgaaatttaaactctagctaacagttttaaattaggacaccaataaccaatctcttgtcaactcttttatccctttgtgcagATCCACGCTTAACAGACTATGACACATTACTCCAGAATCTGCACAATTTAAAGGAAGGAAAGCCAGTTCAAGTTCCCATATATGATTTCAAGTCCAGTTC
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G07610.1 (Glycine max), 3'ss of exon 3
-gttagta-tcagagtgctctattattacaaactgcattctctaaggttataatgtt-tcctaccagagaaattgatattttcacctcttaaaacttgcccagATCCACGTCTGACAGACTATGACACACTGCTGGAAAATATACATGGTCTGAAGGAAGGAAGGTCAGTTCAGGTTCCAATATATGATTTCAAGTCAAGCTG
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aagaaatacttttactcgtttatcatattagtcaatattcaagaaataggaagggatgttatgcaacacagttttctaatgtcattttt---atttgaaacagACCCTCGGTTGACAGATTATGATACCCTGCTCGAAAATATACAGGGTCTTAAAGCAGGGAAGCCTGTTCAAGTTCCAATATACGATTTCAAGTCTAGTTC
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G73980.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------gttagtatcagagtgctctattattacaaactgcattctctaaggttataatgtttcctaccagagaaattgatattttcacctct--taaaacttgcc-cagATCCACGTCTGACAGACTATGACACACTGCTGGAAAATATACATGGTCTGAAGGAAGGAAGGTCAGTTCAGGTTCCAATATATGATTTCAAGTCAAGCTG
| | || || | ||| | ||| | | ||| | || || | | | | || | |||| | ||| || | ||| |||||||| | |||| |||||||| ||||| || || |||||||||||||| | ||| |||| | |||||||||||||||||||| |||||||| || |
gtatgcacctctatgtttcacccttctggattctggttatggatttattcaatcattcctttcttatgt----atatataatctgaatataaagaacatttgcgattctgttatattttgttacagATCCAAGGTTGACTGACTATGATACACTTCTTGACAATATACATGGTCTAAGGGATGGAAAACCTGTTCAGGTTCCAATATATGACTTCAAGTCGAGTTC
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 1
--------gttagt-atcagagtgctctattattacaaactgcattctctaaggttataatgtttc-ctaccagagaaattgatattttcacctcttaaaacttgcccagATCCACGTCTGACAGACTATGACACACTGCTGGAAAATATACATGGTCTGAAGGAAGGAAGGTCAGTTCAGGTTCCAATATATGATTTCAAGTCAAGCTG
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aatagtgagccattcatcaaaatagttaatgatttaaatttaaatcat---agcacatggtgtgactctactggtcctaatatgatttt--tcttctaaaac-----cagATCCCCGTTTGACAGACTATGATACATTGCTCCAGAATGTCCATGATCTGAAGGCTGGAAAGCAGGTTCAGATTCCAATTTATGATTTCAAGTCTAGCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttataatgtttcctaccagagaaattgatattttcacctcttaaaacttgcccagATCCACGTCTGACAGACTATGACACACTGCTGGAAAATATACATGGTCTGAAGGAAGGAAGGTCAGTTCAGGTTCCAATATATGATTTCAAGTCAAGCTG
aattgat putative branch site (score: 4)
cttgccc putative PPT
agaaattgatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtatcagagtgctctattattacaaactgcattctctaaggttataatgtttcctaccagagaaattgatattttcacctcttaaaacttgcccagATCCACGTCTGACAGACTATGACACACTGCTGGAAAATATACATGGTCTGAAGGAAGGAAGGTCAGTTCAGGTTCCAATATATGATTTCAAGTCAAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG