Sequence
atgc intronic sequence ATGC exonic sequence...ttctaatcacagatagtcttaggaaaatttccatacaagttgcagttttgtctatattttatagcattgagagttcttatcagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g32110.3 (Oryza sativa), 3'ss of exon 1
-ttctaatcacagatagtcttaggaaaatttccatacaagttgcagttttgtctatattttatagcattgagagttcttatcagacattc--tttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
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atcatagtggctccatatagaagttaaatttgtcaaaatcttataccataaagttcatttttgttttttgt---ttcttaacaaaaataaaatctgtttgcagTGACATGGAATGTGACCTGCACATACTCCCAATTTCTTGCTCAGAAGACTCCTTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g54750.1 (Oryza sativa), 3'ss of exon 3
ttctaatcacag--atagtcttaggaaaatttccatacaagttgcagttttgtctatattttatagcattgagagttcttatca-gacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
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---taagcatcgtgatggcgttatgagaagttaaattatgttttaagtcttataccagaaatttctctttattgattcttaacaagataaactctacttgcagTGACATGGAATGTGACCTGCACATACTCACAATTTCTTGCTCAGAAGACTCCAACCTGTTGTGTATCTCTCTCGTCATTTTACAATGACACAATTGTGAA
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G06660.1 (Glycine max), 3'ss of exon 3
ttctaatcacagatagtcttaggaaaatttccatacaagttgcagttttgt-----ctatattttatagcattgagagttcttatcag-acattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
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------ccatacgggatctaaataaacagttgttctgagtttttacttcctactagcaaaatccatcaacttagtttgaccttaacattgctctgatttattgcagTGACATGGAATGTGACATGCACATATTCACAATTTCTTGCTCAGAGAACACCCAGTTGCTGTGTCTCGCTCTCATCTTTCTATAACAATACAGTTGTACC
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA02G35400.1 (Glycine max), 3'ss of exon 3
ttctaatcacagatagtcttaggaaaatttccatacaagttgcagttttgt-----ctatattttatagcattgagagttcttatcag-acattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
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------ccatatgggatctaaataaacagttgttctgagtttttacttcctactagcaaaatccatcaacttagtttgaccttaacattgctctgatttattgcagTGACATGGAATGTGACATGCACATATTCACAATTTCTTGCTCAGAGAACACCCAGTTGCTGTGTCTCGCTCTCATCTTTCTATGACAATACAGTTGTACC
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G00210.1 (Glycine max), 3'ss of exon 5
ttctaatcacagatagtcttaggaaaatttccatacaagttgcagttttgtctatattttatagcattgagagttcttatcagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA----------------------------------------------
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-------------------------------------------ttattagtatgaaaccca-agttttggtttagcttaatctgcatatatttttggcagtgacctggaatgttacctgcacatattctcaattcctggctcagAAGACCCCAACTTGCCGTG--TTTCTCTCATCCTTCTATAACAATACAATAGTAAACTGCCCTACCTGCACCTGTGGTTGCCAAAACAAAACAGAACCTGGC
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G04210.1 (Glycine max), 3'ss of exon 3
ttctaatcacagatagtcttaggaaaatttccatacaagttgc-agttttgtcta-tattttatagcattgagagttcttatcagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
|| | | | ||| || || | | |||| |||| ||| | | | || || | | || ||||||||||||||||| || ||||||||||| |||||||||||||||| || | ||||| || || || ||||| || ||||| || || ||||
--ttatccgaaaagggtccaagttaacagttgttctgagtttttagttcctactagcaagatccatcaacttagtttgacccattgctctgatttatggcagTGACATGGAATGTAACATGCACATATTCACAATTTCTTGCTCAGAGAACACCCAGTTGCTGCGTCTCGCTTTCATCTTTCTATAACGATACTGTTGTACC
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G27560.1 (Glycine max), 3'ss of exon 3
-ttctaatcacagatagtcttaggaaaatttccatacaagttgcagttttgtctatattttatagcattgagagttcttatcag-acattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
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gcttaaatttaaaacaattgaagtttacagttggtattagtaac--tatcagaaaattctggcaatttactatatccataacatcactcttgtttattgcagTGACATGGAATGTGACATGCACATACTCACAATTTCTGGCTCAAAAAACTCCCTCTTGTTGTGTCTCACTTTCATCTTTCTATAATGATACCCTTGTTCC
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA17G08830.1 (Glycine max), 3'ss of exon 2
--ttctaatcacagatagtcttaggaaaatttccatacaagttgcagttttgtctatattttatagcattgagagttcttatcagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
|| | | | | || || || || || | | ||| | |||| || ||| |||| ||| || | |||||||| |||||||| |||||||||||||| ||||| || ||||||||||| | | |||||||| ||||||||||| || ||||| | ||| | || ||
tatttatgctttatacattgttcagataaatt--attagtatgaaaaccatgttttagtttttcagatttggtttagcttaatctgcatatatttttggcagTGACCTGGAATGTTACCTGCACATATTCTCAATTCCTGGCTCAGAAGACCCCAACTTGCTGTGTTTCTCTCTCATCCTTCTATAACAATACAGTAGTAAA
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 3
---ttctaatcacagatagtcttaggaaaatttccatacaagttgcagttttgtctatattttatagcattgagagttcttatcagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
| ||| | | | | | | ||| || | | | ||| | | | | | |||| || || | || | ||||||||||||||||||||| |||||||| || |||||||| |||||||| |||| || |||||||| || || ||||| || |||||||| || ||||
gtgcttaaatttaaaacaactgaaaattacagttggtacctgtaac--tatcagctaattctagcaatctgttatatccttaacat-cacttgttttttgcagTGACATGGAATGTGACATGCACATACTCACAATTTCTGGCTCAGAAAACTCCCTCTTGCTGTGTCTCACTTTCATCTTTCTATAATGATACCCTTGTTCC
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv17s0000g05070.t01 (Vitis vinifera), 3'ss of exon 3
---ttctaatcacagatagtcttaggaaaatttccatacaagttgcagttttgtctatattttatagcattgagagttcttatcagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
| | ||| || | | ||| ||||| | | | ||| | || | || || | ||| ||| | || | |||||||| |||||||| || ||||| ||||| ||||| || ||||||||||| | | || ||||| || | ||||| || |||||| |||| || ||
aggatggcaagacacattgacaatggataatttgtgttcttaatatgcatttaaaga-gttctcaagatttaactaatctaatcttcctgtcct--atggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGCCTACATGTTGTGTCTCATTGTCATCGTTCTATAATAACACTATAGTATC
upper sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0083g01160.t01 (Vitis vinifera), 3'ss of exon 3
ttctaatcacagatagtcttaggaaaattt---ccatacaagttgcagttttgt-ctatattttatagcattgagagttcttatcagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
| | ||| | ||| || ||| | | | || | |||| |||| ||| | | || | | | | | |||||||||||||||| || ||||| ||||| ||||| || ||||||| || | | |||||||| || |||||||| || || ||||||||||||||
----agggagtgattcttaaaggcaatttttgtcttccctaattaaaaatttgagctattacccataaatgtactgggcctaaacttatttctctctgtgacagTGACATGGAATGTTACATGCACGTATTCACAATTCCTGTCTCAGAAAACCCCCACTTGCTGTGTCTCGCTCTCATCTTTCTACAATGACACAATTGTACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgtctatattttatagcattgagagttcttatcagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
ttctttatct CT-rich tract
tatattttatagcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctaatcacagatagtcttaggaaaatttccatacaagttgcagttttgtctatattttatagcattgagagttcttatcagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCTGTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA
- - aatcaca
- - - - - - - - - - - - - - - -catacaa
- - - - - - - - - - - - - - - - - - - gttgcag